Sequence
atgc intronic sequence ATGC exonic sequence...agacgatttattctttttttttcctgacattcagacaattaaaccaaatgaagataacatttcttgttcttgcttagcttacttatagttatcattgaagTGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTACTTGGATCAGAAAGCGGTTTTACTCT
Basic information
species | Glycine max |
transcript | GLYMA15G16060.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G16060.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G146012_T01 (Zea mays), 3'ss of exon 2
agacgatttattctttttttttcctgacattcagacaattaaaccaaatgaagataacatttc--ttgttcttgcttagcttacttatagttatca---ttgaagTGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTACTTGGATCAGAAAGCGGTTTTACTCT-------------------------------
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---------------------------------aggattaaaattcccttacaaacccattccgtttattcatgatatacatattgaatgtcaacaattttgctaagcatttttttatttgtt---cttgatgcagGTTCATACGTGACGCACGAGACAAACTACTTTGTATATTTCTACATCGACTCTAAAGCTGTCTTGCTATTCAAGTCTGGGTGATTGCTCGCAGCCGACGC
upper sequence: GLYMA15G16060.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0077g02110.t01 (Vitis vinifera), 3'ss of exon 2
agacgatttattctttttttttcctgacattcagacaattaaaccaaatgaagataacatttcttgttcttgcttagcttacttatagttatcattgaagTGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTACTTGGATCAGAAAGCGGTTTTACTCT-------------------------------
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----------------attcttctagtcatttgg-----tgaaaaatatgg-gattgcaattgtt-ttaaaactt---ttaaataaagatgcc-ttaac---cattt-tattttcctggttttttctacagGTTCATATGTGACTCATGAAACAAACCATTTTGTTTACTTCTATTTGGACCAAAAGGCAGTCTTGCTGTTCAAATCTGGTTGAGAGTGGTGATGATGTTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|22930439|gb|BU547578.1|BU547578EST: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTG TGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAA
genomic: CGATAAGAGGCATGGCCCCACTTGGCATTGCATCGTTGGTCGTAATTTTGgtaactccct ... atcattgaagTGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgaagataacatttcttgttcttgcttagcttacttatagttatcattgaagTGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTACTTGGATCAGAAAGCGGTTTTACTCT
agcttac putative branch site (score: 3)
ttacttatagttat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agacgatttattctttttttttcctgacattcagacaattaaaccaaatgaagataacatttcttgttcttgcttagcttacttatagttatcattgaagTGCATTCATGTACTTCTCTTGCTTTTTGCAGGTTCATATGTGACTCATGAAACAAACCACTTTGTTTATTTCTACTTGGATCAGAAAGCGGTTTTACTCT
- - - - - - - - - - - cctgaca
- - - - - - - - - - - - - - - - - - - - -aaccaaa